code to run sei and obtain sei and sequence class predictions
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CASSIA: A Multi-Agent LLM-Based Single-Cell Cell Type Annotation Framework
- ai4science
- llm
- multiagent-systems
- prompt-engineering
Integrated pipeline for multiplexed image analysis
- multiplexed-imaging
- python
:spider_web: Compute interesting points, areas, and volumes in simplex meshes of any dimension.
- mathematics
- python
- pypi
- voronoi-diagram
Official repo for CellPLM: Pre-training of Cell Language Model Beyond Single Cells.
:dart: Accurate sums and dot products for Python.
- mathematics
- numerical-methods
- engineering
- accuracy
hsolve：电磁仿真大规模非正定厄密特征值求解。Certified shift-invert eigensolver for large sparse Hermitian (indefinite, generalized) eigenproblems from EM simulation: MUMPS LDLᵀ + block Krylov-Schur + Sylvester-inertia completeness certificate.
- computational-electromagnetics
- cpp17
- eigensolver
- eigenvalues
Detecting cancers on mobile phones
PRnet is a flexible and scalable perturbation-conditioned generative model predicting transcriptional responses to unseen complex perturbations at bulk and single-cell levels.
Toolbox for the analysis of smFISH images.
- pattern-classification
- rna-localization
- segmentation
- smfish
TypeDB Bio: Biomedical Knowledge Graph
- bioinformatics
- knowledge-graph
- knowledge-base
- drug-discovery
BulkFormer: A large-scale foundation model for human bulk transcriptomes
python functions for simulating optical transfer functions
- microscopy
- numpy
NeoDTI: Neural integration of neighbor information from a heterogeneous network for discovering new drug-target interactions
- computational-biology
- bioinformatics
- graph-convolution
- deep-learning
PyTorch implementation of the MIDAS algorithm for single-cell multimodal data integration (Nature Biotechnology 2024).
- deep-generative-model
- deep-learning
- single-cell-data-integration
- single-cell-multiomics
Python package for analysis of multiomic single cell RNA-seq and ATAC-seq.
Peax is a tool for interactive visual pattern search and exploration in epigenomic data based on unsupervised representation learning with autoencoders
- epigenomics
- pattern-search
- data-visualization
- interactive-machine-learning
Research experiments exploring uncommon quant techniques.
- analysis
- jupyter-notebook
- python
- quant
An open-source mathematical tire modelling library
Machine learning for Analysis of Proteomics in Spatial biology - Nature Communications
- cell-annotation
- multiplexed-imaging
- mpif
Repository for paper scMulan: a multitask generative pre-trained language model for single-cell analysis.
- foundation-models
- gpt
- single-cell
Run scripts, explore your genome, and get personalized explanations — all in natural dialogue.
- analysis
- claude
- claudecode
- dna
Classification and Gradient-based Localization of Chest Radiographs using PyTorch.
- fine-tuning
- vgg16
- resnet18
- densenet121
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